Variant report

Variant	rs1533917
Chromosome Location	chr12:39203185-39203186
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10160990	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1095573	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1095578	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11169604	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11169615	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11169618	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11537523	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1400281	0.81[EUR][1000 genomes]
rs1533918	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1684426	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1719833	0.88[EUR][1000 genomes]
rs1719860	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1996879	0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2056529	0.81[EUR][1000 genomes]
rs4002228	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4768394	0.81[EUR][1000 genomes]
rs7298168	0.81[EUR][1000 genomes]
rs826845	0.82[EUR][1000 genomes]
rs826847	0.82[EUR][1000 genomes]
rs826849	0.86[EUR][1000 genomes]
rs826866	0.81[EUR][1000 genomes]
rs826882	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs826884	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs826885	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs851933	0.90[EUR][1000 genomes]
rs862331	0.82[EUR][1000 genomes]
rs862332	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv676	chr12:39184359-39215822	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Active TSS	lncRNA	n/a	inside rSNPs	diseases
2	nsv1047623	chr12:39187817-39539939	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:39184200-39205800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:39200800-39205000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr12:39201200-39208000	Weak transcription	A549	lung
4	chr12:39201600-39208800	Weak transcription	Esophagus	oesophagus
5	chr12:39201800-39205600	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr12:39201800-39216600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr12:39202800-39203400	Strong transcription	Liver	Liver
8	chr12:39202800-39204800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr12:39203000-39203200	Enhancers	Aorta	Aorta
10	chr12:39203000-39203200	Enhancers	Pancreas	Pancrea
11	chr12:39203000-39203200	ZNF genes & repeats	Psoas Muscle	Psoas
12	chr12:39203000-39203400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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